MmuINT0053439 @ mm9
Intron Retention
Gene
ENSMUSG00000069441 | Dsg1a
Description
desmoglein 1 alpha [Source:MGI Symbol;Acc:MGI:94930]
Coordinates
chr18:20485122-20486872:+
Coord C1 exon
chr18:20485122-20485288
Coord A exon
chr18:20485289-20486737
Coord C2 exon
chr18:20486738-20486872
Length
1449 bp
Sequences
Splice sites
5' ss Seq
GAGGTAATC
5' ss Score
7.05
3' ss Seq
CCATAATGTGTCTTTTTCAGCAA
3' ss Score
8.99
Exon sequences
Seq C1 exon
ACACACTGGTAATGAAACTCAATGCTACCGATGCCGATGAGCCAAATAACTTGAACTCAATGATAGCCTTCAAGATCATAAGACAGGAGCCTTCTGACTCACCAATGTTCATCATCAACAGGAAAACTGGAGAAATCAGAACAATGAATAACTTTCTAGACAGAGAG
Seq A exon
GTAATCCTTCATCTTCTCATGGATTTTTATTCAAAGGAACTGGCTCTAAAGTAATGGTACTTAAGAGAAAGAGAAACTAAAAGAATGTGTTCAAACACTGTATGTGTGGTCCTTTGCATGCTAGGGCATTCTTGTGAAAGTCAGAGGACAACTTCTAAGAGTTGTATGTCTCCTTGCATAAAGGGGGATATCTTTCAAGTTGTCAGGTTTATGGTAAGTGCGTTTAACTGCTCAGTCATCTCGACCACCCTATTTATACTAATAAATTAATTTAAAACATTTTACAAACAATATGTTTTGATCATATTCTTTCCCCTCTTCCAACTCCTCCCAGATCTTCCTCAATTTTCTTTCACCCAACTTCATTGTCTCTCCCCGCCTCCCCCATTTCCACTCAAAAGAAGTCAAAGATCAAAACAAATAAGATAAAAATTATTAAAATAAAATACTCTCCCCTCCCCCCCCCCTCTCTCTCTCACACACACACACACACACAAATAGGAGTTTGGTTAGTACTCCTGGACATGGGCCCTACCCTGGACTGTGACTGATATACGACATCCCACTGTTTTCTATTTTCCAGCAGGAATCACTTGCAAATAGCTTCTCAACTGGAGGTGGGATTATGAATCCACTTCTCCACAGGGCTGGAATTTTGTCTCATTTAAACTTATATAGGTCTGTGGATGATTTTAGGTTACATAAAGTATTTTATTGACTTATTTGAAAAACACCTTTGAAAAAAAAGTGTGCTTATATAGCCTTTACCTTTTCTCTAAGAGTATTTTATATAATTCAACAAAAATATATTAACATCAAAATAATTTTAGCAGTAAAGTTCCCTTAGAAAAGGAGTTAGAAGTGAAAGCCTTTCAAAACCACTGAGGATTCTGAGGACCATGAAGAGAAGTACGGAAGTTATATTCATAAATGGTAATTGTTATGTTTATGCACAAGTCTAAGGATGCTTCCATAGCTTTTACCAACGTCAAAAAGTGGAGTCACCACTGAATAGAATCAAAGTAGAAACATCATCAGTGACTCCATCCCTGCTTTCCACCTTCCACTAGACACCTCTGTATTGTCATAAATTCTCAGTGGCTTATGGCTCAGAGCATGTATCTTTAATGAACCATATCTTTCTCCTCTTAAATATTGTGGCCTGTTTCACCCTTTATACCCTTCTCCTCTCTCTGGGCACAGAATGAATAAGAAAAGAAGTCATTAACAAAACTTTCCCATCTTTGAGAGCATGCTGGGTAAGCATCGCTGGAAATGGATGCCACAAAACCCATACTGAGTGATGTGAGATCTGTGGATTTTCACCTTCAGTTTCCTTGTCTTCTATGGGGGGTTTATGTAGGCATTGAGCCAATGTTTGAAAAGACTTCTGCATAAGACACAGTGTCTATGCCTAGTGTGTGATTGCCCATAATGTGTCTTTTTCAG
Seq C2 exon
CAATATAGCCAGTATTCCCTTGTGGTGAGAGGCTCAGACCGGGACGGTGGAGCAGACGGCATGTCTGCAGAGAGCGAGTGCAGCATCACCATCCTGGATGTCAATGACAACATCCCATACTTGGAGCAGTCATCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000069441-Dsg1a:NM_010079:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.071 A=NA C2=0.111
Domain overlap (PFAM):
C1:
PF0002812=Cadherin=FE(55.6=100)
A:
NA
C2:
PF0002812=Cadherin=PD(31.3=68.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACACACTGGTAATGAAACTCAATGC
R:
CCAAGTATGGGATGTTGTCATTGAC
Band lengths:
291-1740
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: